genome.fa.s6.2.7.7.80.10.50.1000.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Dt_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   

This is table  2  of  141  ( 16820 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290977--291020	22	2.0	22	81	0	52	40	0	2	56	1.11
299736--299976	50	4.7	50	85	5	268	27	21	28	22	1.99
299736--299976	100	2.3	103	83	5	301	27	21	28	22	1.99
317955--318126	50	3.4	50	91	0	281	26	22	30	20	1.98
324755--324887	50	2.7	50	98	0	257	25	21	32	20	1.98
328319--328348	15	2.1	15	93	6	53	26	20	0	53	1.46
333777--333956	50	3.5	50	78	9	148	23	25	21	29	1.99
344139--344182	22	2.0	21	83	12	54	40	0	0	59	0.98
348605--348643	20	2.0	20	85	10	53	7	33	0	58	1.26
352470--352504	16	2.2	16	94	0	61	31	0	31	37	1.58
368622--368655	10	3.4	10	100	0	68	29	0	8	61	1.26
369262--369301	20	2.0	20	90	9	64	15	22	7	55	1.65
369555--369680	50	2.5	50	84	0	153	25	27	18	28	1.98
369572--369696	50	2.5	50	84	0	151	23	28	20	28	1.99
388825--388895	25	2.8	25	95	0	133	28	22	16	32	1.96
395753--395790	20	1.9	20	84	10	51	5	34	2	57	1.35
398986--399112	20	6.3	20	75	4	94	12	28	18	40	1.87
400933--401195	40	6.6	40	88	3	325	26	27	20	24	1.99
405986--406027	19	2.3	19	80	8	52	26	2	33	38	1.69
407779--407817	20	2.0	19	90	5	60	7	33	20	38	1.81
411384--411461	29	2.7	28	84	11	104	25	14	30	29	1.94
411414--411741	174	1.9	174	96	0	602	30	14	24	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415283--415403	51	2.4	51	80	5	138	23	17	26	32	1.97
422247--422309	22	2.8	24	82	17	66	36	15	25	22	1.94
440291--440325	17	2.1	16	89	5	52	37	14	0	48	1.44
442461--442606	77	1.9	77	89	0	229	26	21	10	41	1.85
444208--444470	40	6.6	40	88	3	325	26	27	20	24	1.99
452160--452422	40	6.6	40	88	3	325	26	27	20	24	1.99
455835--455867	15	2.1	16	94	5	59	60	6	6	27	1.44
489043--489085	22	2.0	22	90	0	68	9	23	25	41	1.84
489149--489536	43	9.0	43	77	3	305	25	30	20	23	1.99
489863--489933	21	3.4	21	86	0	88	12	46	9	30	1.74
489910--490050	66	2.1	66	88	5	205	14	28	17	39	1.89
489910--490073	66	2.5	66	86	5	199	14	27	17	40	1.88
490203--490329	66	1.9	66	87	6	186	16	23	15	44	1.86
489930--490442	256	2.0	256	98	0	990	19	23	18	38	1.93
495758--495883	9	14.9	9	69	15	90	33	3	19	43	1.67
495771--495890	25	4.8	25	76	9	127	34	2	19	44	1.64
495759--495890	50	2.6	50	83	8	167	34	3	19	42	1.67
495875--495951	32	2.3	34	78	21	90	42	0	14	42	1.45
495900--496047	12	12.6	11	68	22	70	37	0	14	48	1.44
495890--496045	32	4.8	31	71	21	115	37	0	14	48	1.45
495958--496029	36	2.0	36	89	5	110	37	0	12	50	1.41
495869--496047	12	15.2	12	67	22	62	37	0	14	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495895--496103	97	2.2	96	92	2	348	36	0	14	48	1.44
496109--496170	19	3.2	19	82	11	63	51	1	1	45	1.20
496331--496635	9	35.9	9	66	21	124	32	1	19	45	1.62
496344--496428	25	3.4	25	83	6	118	34	0	18	47	1.49
496459--496483	13	1.9	13	100	0	50	36	0	16	48	1.46
496442--496485	22	2.0	21	91	4	70	36	0	15	47	1.46
496442--496754	55	5.9	50	68	20	152	32	0	18	47	1.55
496442--496546	52	2.0	51	84	14	135	33	0	18	47	1.55
496534--496613	16	4.9	16	78	6	61	30	1	21	47	1.59
496525--496635	25	4.4	25	75	8	109	28	1	22	46	1.62
496622--496666	23	1.9	24	90	4	74	40	0	17	42	1.50
496652--496681	12	2.6	11	90	10	51	43	0	10	46	1.37
496662--496704	21	2.0	21	86	0	59	30	0	18	51	1.47
496764--496808	19	2.3	19	85	11	56	53	2	0	44	1.13
496775--496827	21	2.5	22	78	9	65	54	1	1	41	1.22
498829--499014	45	4.0	45	66	10	122	29	20	17	32	1.96
499762--500101	46	7.4	46	87	0	475	34	26	14	24	1.94
501601--501647	12	3.8	12	82	17	53	0	17	0	82	0.66
501603--501658	20	2.8	20	84	10	62	0	14	1	83	0.72
501605--501656	27	1.9	27	84	7	70	0	15	1	82	0.75
501600--501658	13	4.5	13	74	14	50	0	15	1	83	0.74
504113--504159	19	2.5	20	86	6	62	42	10	21	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507433--507530	30	3.2	29	69	25	85	13	12	7	67	1.41
507423--507545	62	2.0	60	93	3	210	13	15	5	65	1.45
509605--509644	19	2.0	20	86	13	57	47	0	5	47	1.24
509593--509659	20	3.2	21	75	10	57	50	0	5	43	1.26
509678--509710	10	3.3	10	87	12	50	15	3	0	81	0.80
509888--509921	2	17.5	2	87	6	52	44	2	0	52	1.16
510342--510402	23	2.7	22	76	16	63	37	40	1	19	1.62
510725--510757	14	2.3	15	94	5	59	36	33	0	30	1.58
511151--511475	41	8.0	41	78	4	307	31	24	21	22	1.98
511834--511868	17	2.1	17	94	0	61	14	5	2	77	1.07
513868--513906	19	2.1	19	85	9	53	46	5	0	48	1.24
514106--514148	22	2.0	22	90	0	68	11	23	0	65	1.25
514103--514155	22	2.3	23	77	9	63	11	22	0	66	1.24
515410--515576	55	3.0	55	100	0	334	34	1	20	43	1.62
515693--515737	22	2.0	22	100	0	90	37	0	13	48	1.42
516024--516093	20	3.5	20	82	0	86	12	25	18	42	1.86
520309--520345	9	4.1	9	92	0	65	45	13	10	29	1.77
530351--530406	27	2.1	27	96	0	103	17	35	0	46	1.49
543395--543454	26	2.3	26	91	0	102	30	20	25	25	1.99
543601--543682	32	2.6	33	82	7	98	34	23	21	20	1.97
543930--544160	27	8.6	27	84	2	232	26	20	17	34	1.95
543908--544160	54	4.7	54	81	7	259	27	21	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543924--544160	81	2.9	81	82	1	280	27	20	18	33	1.96
543963--544185	54	4.1	54	79	5	141	26	19	17	35	1.94
556776--556922	75	2.0	75	80	2	170	26	13	11	48	1.77
559242--559451	40	5.3	39	89	4	242	25	21	27	25	1.99
559189--559451	120	2.2	120	82	4	309	25	21	27	25	1.99
559190--559486	80	3.7	80	81	6	230	26	21	27	24	1.99
569914--570033	38	3.0	39	85	9	188	17	16	15	50	1.79
569914--570035	42	3.0	42	89	5	198	18	16	15	50	1.79
570234--570612	190	2.0	190	97	0	713	29	23	11	35	1.90
571347--571524	27	6.6	27	81	3	169	28	28	15	27	1.96
571368--571523	82	1.9	81	86	3	224	28	28	15	27	1.96
577256--577435	90	2.0	90	100	0	360	22	26	26	24	2.00
579979--580241	40	6.6	40	88	3	325	24	20	27	26	1.99
580018--580276	80	3.3	80	85	3	256	25	20	27	25	1.99
587926--588150	80	2.8	79	82	3	236	24	20	28	27	1.99
587979--588148	40	4.3	40	90	0	234	24	20	28	27	1.99
596403--596524	50	2.4	50	80	0	118	22	28	21	27	1.99
613645--613685	21	2.0	20	100	0	73	24	24	9	39	1.85
616176--616233	30	1.9	30	82	6	73	41	5	25	27	1.76
616559--616812	102	2.5	103	85	0	366	18	19	28	33	1.95
620904--620946	21	2.0	21	95	0	77	37	18	27	16	1.92
624231--624282	27	1.9	27	96	0	95	15	26	32	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624052--624356	102	3.0	102	92	0	486	19	20	27	32	1.97
624294--624428	41	3.5	41	78	15	187	20	20	28	31	1.97
624258--624430	74	2.3	74	100	0	346	19	20	27	31	1.97
624331--624533	101	2.0	103	90	1	320	19	19	28	33	1.96
624449--624608	76	2.1	75	92	1	266	20	20	26	33	1.97
628427--628487	25	2.4	25	78	10	63	37	3	1	57	1.25
646961--647120	80	2.0	80	100	0	320	33	27	16	22	1.95
658701--658742	18	2.3	18	87	0	57	42	7	26	23	1.80
670188--670373	40	4.7	40	87	5	227	25	26	22	25	2.00
671410--671503	47	2.0	47	100	0	188	42	19	17	21	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141